Wall clock time and date at job start Wed Apr 1 2020 05:29:42
AMSOL-version 7.1
by G. D. Hawkins, D. J. Giesen, G. C. Lynch, C. C. Chambers,
I. Rossi, J. W. Storer, J. Li, J. D. Thompson, P. Winget,
B. J. Lynch, D. Rinaldi, D. A. Liotard, C. J. Cramer, and D. G. Truhlar
Copyright 2004 by Regents of the University of Minnesota.
All rights reserved.
Notice: recipients of this code are asked to comply
with the user agreement in Section 1 of the documentation file.
*******************************************************************************
* 1SCF - SCF CALCULATION WITHOUT GEOMETRY OPTIMIZATION
* - USE EF ROUTINE FOR MINIMUM SEARCH (DEFAULT)
* GEO-OK - OVERRIDE INTERATOMIC DISTANCE CHECK
* TLIMIT= - A TIME OF 15. SECONDS REQUESTED
* CHARGE - CHARGE ON SYSTEM= -1
* AM1 - THE AM1 HAMILTONIAN TO BE USED
* SM5.42R - SM5.42R CALCULATIONS WILL BE PERFORMED
* - CHARGE MODEL 2 WILL BE USED (CM2A)
* - THE SOLVENT IS WATER
*******************************************************************************
Atom NO. Chemical Bond length Bond angle Dihedral angle
number (k) symbol (angstroms) (degrees) (degrees)
(I) NA:I NB:NA:I NC:NB:NA:I NA NB NC
1 1 C
2 2 C 1.52995 * 1
3 3 C 1.52999 * 109.47400 * 2 1
4 4 C 1.53007 * 109.46759 * 119.99430 * 2 1 3
5 5 N 1.46503 * 109.47012 * 65.00362 * 4 2 1
6 6 C 1.35427 * 119.46972 * 270.01833 * 5 4 2
7 7 C 1.35764 * 121.23243 * 179.97438 * 6 5 4
8 8 C 1.39470 * 120.12742 * 359.72874 * 7 6 5
9 9 C 1.39346 * 118.96017 * 0.53916 * 8 7 6
10 10 C 1.47080 * 120.58604 * 179.73132 * 9 8 7
11 11 O 1.21644 * 120.00534 * 305.72216 * 10 9 8
12 12 N 1.34780 * 119.99596 * 125.72630 * 10 9 8
13 13 C 1.47421 * 125.65016 * 4.79414 * 12 10 9
14 14 C 1.54905 * 104.83510 * 204.09584 * 13 12 10
15 15 C 1.55162 * 101.58145 * 322.98797 * 14 13 12
16 16 C 1.47022 * 125.64895 * 184.75456 * 12 10 9
17 17 H 1.09004 * 109.88023 * 59.40231 * 16 12 10
18 18 C 1.52998 * 109.88141 * 298.39341 * 16 12 10
19 19 N 1.46503 * 109.47334 * 75.81262 * 18 16 12
20 20 C 1.36939 * 120.00237 * 187.43979 * 19 18 16
21 21 H 1.07999 * 119.99553 * 0.02562 * 20 19 18
22 22 C 1.38809 * 119.99849 * 179.97438 * 20 19 18
23 23 N 1.31622 * 119.99640 * 179.97438 * 22 20 19
24 24 Si 1.86796 * 120.00266 * 0.02562 * 22 20 19
25 25 H 1.48498 * 109.47132 * 269.99855 * 24 22 20
26 26 H 1.48506 * 109.47154 * 29.99929 * 24 22 20
27 27 H 1.48505 * 109.47062 * 149.99587 * 24 22 20
28 28 C 1.34663 * 119.47024 * 89.99677 * 5 4 2
29 29 O 1.21882 * 120.10127 * 0.04395 * 28 5 4
30 30 H 1.08998 * 109.47726 * 300.00541 * 1 2 3
31 31 H 1.09004 * 109.47128 * 60.00288 * 1 2 3
32 32 H 1.09001 * 109.47314 * 179.97438 * 1 2 3
33 33 H 1.08998 * 109.47726 * 239.99459 * 2 1 3
34 34 H 1.08995 * 109.47268 * 179.97438 * 3 2 1
35 35 H 1.09004 * 109.46745 * 299.99946 * 3 2 1
36 36 H 1.08998 * 109.47123 * 59.99090 * 3 2 1
37 37 H 1.08998 * 109.47569 * 304.99956 * 4 2 1
38 38 H 1.08999 * 109.46878 * 184.99933 * 4 2 1
39 39 H 1.08000 * 119.38634 * 359.96246 * 6 5 4
40 40 H 1.07995 * 119.93738 * 180.02562 * 7 6 5
41 41 H 1.07996 * 120.52489 * 180.28019 * 8 7 6
42 42 H 1.09003 * 110.36974 * 322.93450 * 13 12 10
43 43 H 1.09007 * 110.36666 * 85.25283 * 13 12 10
44 44 H 1.08995 * 111.00960 * 81.06320 * 14 13 12
45 45 H 1.09001 * 111.00591 * 204.91709 * 14 13 12
46 46 H 1.09001 * 110.72059 * 277.14395 * 15 14 13
47 47 H 1.08994 * 110.71845 * 153.86304 * 15 14 13
48 48 H 1.08999 * 109.47237 * 315.81469 * 18 16 12
49 49 H 1.08997 * 109.47294 * 195.80913 * 18 16 12
50 50 H 0.97004 * 119.99503 * 7.43612 * 19 18 16
51 51 H 0.96995 * 119.99859 * 180.02562 * 23 22 20
Note: An asterisk (*) indicates this parameter was or will be optimized.
Cartesian coordinates (angstroms)
NO. Atom X Y Z
1 6 0.0000 0.0000 0.0000
2 6 1.5300 0.0000 0.0000
3 6 2.0400 1.4425 0.0000
4 6 2.0399 -0.7212 1.2494
5 7 1.6523 -2.1328 1.1908
6 6 0.4684 -2.5212 1.7213
7 6 0.0735 -3.8197 1.6863
8 6 0.8879 -4.7833 1.0917
9 6 2.1101 -4.3919 0.5488
10 6 2.9995 -5.3793 -0.0814
11 8 3.3399 -6.3717 0.5341
12 7 3.4375 -5.1844 -1.3411
13 6 3.1868 -3.9859 -2.1622
14 6 3.3217 -4.4730 -3.6265
15 6 4.4835 -5.4947 -3.5091
16 6 4.2451 -6.1314 -2.1237
17 1 3.7084 -7.0738 -2.2336
18 6 5.5845 -6.3742 -1.4251
19 7 5.3825 -7.2599 -0.2758
20 6 6.4126 -7.4982 0.5944
21 1 7.3738 -7.0329 0.4336
22 6 6.2209 -8.3370 1.6837
23 7 7.2112 -8.5665 2.5198
24 14 4.5580 -9.1411 1.9622
25 1 3.7169 -8.2582 2.8095
26 1 3.8877 -9.3577 0.6548
27 1 4.7476 -10.4470 2.6435
28 6 2.4789 -3.0232 0.6098
29 8 3.5406 -2.6544 0.1383
30 1 -0.3634 0.5139 0.8899
31 1 -0.3633 0.5138 -0.8900
32 1 -0.3634 -1.0277 -0.0005
33 1 1.8934 -0.5139 -0.8899
34 1 3.1300 1.4424 0.0005
35 1 1.6767 1.9563 -0.8900
36 1 1.6766 1.9564 0.8899
37 1 1.6053 -0.2616 2.1371
38 1 3.1262 -0.6443 1.2953
39 1 -0.1736 -1.7844 2.1810
40 1 -0.8752 -4.1063 2.1154
41 1 0.5780 -5.8172 1.0562
42 1 2.1819 -3.6048 -1.9803
43 1 3.9294 -3.2172 -1.9481
44 1 2.4060 -4.9596 -3.9624
45 1 3.5906 -3.6501 -4.2888
46 1 5.4478 -4.9874 -3.5395
47 1 4.4169 -6.2464 -4.2956
48 1 5.9938 -5.4234 -1.0836
49 1 6.2798 -6.8390 -2.1241
50 1 4.5189 -7.6774 -0.1312
51 1 7.0774 -9.1528 3.2808
RHF calculation, no. of doubly occupied orbitals= 66
REFERENCES FOR PARAMETERS IN GAS-PHASE HAMILTONIAN:
H: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
C: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
N: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
O: (AM1): M.J.S. DEWAR ET AL, J. AM. CHEM. SOC. 107 3902-3909 (1985)
Si: (AM1): M.J.S.DEWAR, C. JIE, ORGANOMETALLICS, 6, 1486-1490 (1987).
REFERENCE FOR CHARGE MODEL 2:
J. Li, J. Xing, C. J. Cramer, and D. G. Truhlar, J. Chem. Phys. 111 (1999) 885.
REFERENCE FOR THE PARAMETERIZATION OF THE SM5.42R SOLVATION MODEL:
J. Li, T. Zhu, G. D. Hawkins, P. Winget, D. A. Liotard, C. J. Cramer, and
D. G. Truhlar, Theor. Chem. Acc. 103 (1999) 9-63
P. Winget, J. D. Thompson C. J. Cramer,and D. G. Truhlar, J. Phys. Chem. B. submitted.
CHARGE=-1 AM1 1SCF TLIMIT=15 GEO-OK SM5.42R
& SOLVNT=WATER
ZINC001277956805.mol2 51
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
SCF FIELD WAS ACHIEVED
Wall clock time and date at job start Wed Apr 1 2020 05:29:42
Heat of formation + Delta-G solvation = -31.965878 kcal
Electronic energy + Delta-G solvation = -32695.474273 eV
Core-core repulsion = 28595.241348 eV
Total energy + Delta-G solvation = -4100.232925 eV
No. of doubly occupied orbitals = 66
Molecular weight
(most abundant/longest-lived isotopes) = 347.200 amu
Computer time = 0.99 seconds
Orbital eigenvalues (eV)
-42.65311 -40.99775 -38.51857 -38.19887 -37.20105 -36.43097 -34.38603 -33.58190
-32.60437 -31.02208 -30.66501 -28.18973 -27.91131 -26.81221 -26.07229 -24.30668
-23.84701 -23.17504 -22.07477 -21.29122 -20.49495 -19.87488 -18.69806 -18.39383
-17.91333 -17.52559 -17.15057 -16.74941 -16.64811 -16.24706 -15.75323 -15.59462
-15.32367 -15.17541 -14.88937 -14.73296 -14.62909 -14.28230 -13.90565 -13.84879
-13.63088 -13.56209 -13.42440 -13.34736 -13.11493 -13.06189 -12.96187 -12.78774
-12.72897 -12.28105 -12.14253 -12.07063 -11.95797 -11.92721 -11.80394 -11.68702
-11.60537 -11.20355 -11.01880 -10.99721 -10.66179 -9.61257 -9.14970 -9.00163
-8.04571 -5.30326 -0.44965 0.84035 1.26755 1.39983 1.41071 1.49567
1.83703 2.12064 2.51081 2.56623 3.27200 3.44811 3.52605 3.60967
3.68351 3.76646 3.81332 3.86575 3.94031 3.97324 4.12599 4.17090
4.22939 4.25142 4.30660 4.38939 4.57362 4.60672 4.69611 4.71389
4.76384 4.79823 4.82725 4.85081 4.92230 4.95102 4.99329 5.00717
5.06704 5.12299 5.21774 5.22727 5.34047 5.37966 5.39019 5.52277
5.55251 5.70221 5.96178 6.21605 6.60694 6.91582 7.09300 7.31376
7.96380 8.19606 9.18153
Molecular weight = 347.20amu
Principal moments of inertia in cm(-1)
A = 0.012007 B = 0.003887 C = 0.003404
Principal moments of inertia in units of 10**(-40)*gram-cm**2
A = 2331.402110 B = 7201.088407 C = 8224.347379
Net atomic charges, atomic populations, and dipole contributions
calculated with CM2
Atom NO. Type Charge No. of electrons
1 C -0.149 4.149
2 C -0.106 4.106
3 C -0.141 4.141
4 C 0.088 3.912
5 N -0.484 5.484
6 C 0.174 3.826
7 C -0.238 4.238
8 C 0.049 3.951
9 C -0.309 4.309
10 C 0.576 3.424
11 O -0.557 6.557
12 N -0.603 5.603
13 C 0.114 3.886
14 C -0.117 4.117
15 C -0.113 4.113
16 C 0.126 3.874
17 H 0.067 0.933
18 C 0.148 3.852
19 N -0.745 5.745
20 C -0.223 4.223
21 H 0.046 0.954
22 C -0.064 4.064
23 N -0.988 5.988
24 Si 0.976 3.024
25 H -0.290 1.290
26 H -0.271 1.271
27 H -0.294 1.294
28 C 0.519 3.481
29 O -0.576 6.576
30 H 0.084 0.916
31 H 0.062 0.938
32 H 0.054 0.946
33 H 0.048 0.952
34 H 0.044 0.956
35 H 0.066 0.934
36 H 0.078 0.922
37 H 0.135 0.865
38 H 0.073 0.927
39 H 0.224 0.776
40 H 0.195 0.805
41 H 0.138 0.862
42 H 0.068 0.932
43 H 0.058 0.942
44 H 0.090 0.910
45 H 0.110 0.890
46 H 0.078 0.922
47 H 0.110 0.890
48 H 0.001 0.999
49 H 0.037 0.963
50 H 0.377 0.623
51 H 0.256 0.744
For the charges calculated by CM2:
Dipole moment (debyes) X Y Z Total
from point charges -26.636 23.950 -9.470 37.051
Note: The Mulliken population analysis charges presented below were not
used in the solvation calculation but are provided for completeness.
The chosen solvation model uses CM2 partial charges for calculating
solvation energies.
Net atomic charges, atomic populations, and dipole contributions
using Mulliken population analysis
Atom NO. Type Charge No. of electrons
1 C -0.206 4.206
2 C -0.125 4.125
3 C -0.199 4.199
4 C -0.033 4.033
5 N -0.191 5.191
6 C 0.045 3.955
7 C -0.260 4.260
8 C 0.025 3.975
9 C -0.316 4.316
10 C 0.365 3.635
11 O -0.436 6.436
12 N -0.335 5.335
13 C -0.009 4.009
14 C -0.155 4.155
15 C -0.151 4.151
16 C 0.022 3.978
17 H 0.085 0.915
18 C 0.020 3.980
19 N -0.396 5.396
20 C -0.354 4.354
21 H 0.064 0.936
22 C -0.255 4.255
23 N -0.641 5.641
24 Si 0.806 3.194
25 H -0.217 1.217
26 H -0.196 1.196
27 H -0.221 1.221
28 C 0.322 3.678
29 O -0.461 6.461
30 H 0.103 0.897
31 H 0.081 0.919
32 H 0.073 0.927
33 H 0.067 0.933
34 H 0.063 0.937
35 H 0.085 0.915
36 H 0.096 0.904
37 H 0.153 0.847
38 H 0.091 0.909
39 H 0.240 0.760
40 H 0.212 0.788
41 H 0.156 0.844
42 H 0.087 0.913
43 H 0.076 0.924
44 H 0.109 0.891
45 H 0.128 0.872
46 H 0.097 0.903
47 H 0.128 0.872
48 H 0.019 0.981
49 H 0.054 0.946
50 H 0.217 0.783
51 H 0.065 0.935
Dipole moment (debyes) X Y Z Total
from point charges -25.585 23.741 -9.325 36.128
hybrid contribution 0.269 -0.976 0.728 1.247
sum -25.316 22.765 -8.597 35.115
Atomic orbital electron populations
1.21949 0.92634 1.02195 1.03829 1.21381 0.97940 0.96943 0.96220
1.21735 1.00683 0.93986 1.03475 1.22440 1.02466 0.76539 1.01810
1.45589 1.17023 1.10881 1.45604 1.23086 0.84820 0.98569 0.89026
1.21052 1.04579 0.90921 1.09421 1.22136 0.89298 1.01357 0.84676
1.20763 1.00924 0.93525 1.16381 1.17822 0.79818 0.85512 0.80318
1.90697 1.57837 1.32377 1.62640 1.48424 1.51957 1.19816 1.13341
1.22359 1.00647 0.87075 0.90779 1.22818 0.98959 0.99535 0.94187
1.22632 1.00080 0.99580 0.92832 1.21982 0.90356 0.93169 0.92312
0.91483 1.21143 0.95965 0.92064 0.88827 1.43113 1.11959 1.56012
1.28558 1.19081 0.91808 1.21145 1.03361 0.93572 1.25339 1.00958
1.01893 0.97261 1.69897 1.33125 1.43605 1.17455 0.85078 0.80376
0.76333 0.77656 1.21722 1.19645 1.22091 1.16828 0.84620 0.85874
0.80466 1.90899 1.24236 1.80582 1.50357 0.89689 0.91884 0.92744
0.93320 0.93676 0.91451 0.90350 0.84687 0.90859 0.76000 0.78817
0.84378 0.91331 0.92367 0.89103 0.87165 0.90284 0.87209 0.98122
0.94575 0.78340 0.93548
Number of geometries 1
Number of calculations of the screened coulomb radii 1
The total number of SCF iterations 15.
Note: The number of geometries may not
correspond to the number of cycles due to rejected geometry changes.
In the following table subtotal= G_P + SS G_CDS.
Atom Chem. CM2 G_P Area Sigma k SS G_CDS Subtotal M
number symbol chg. (kcal) (Ang**2) cal/(Ang**2) (kcal) (kcal) value
1 C -0.15 -0.80 8.63 71.98 0.62 -0.18 16
2 C -0.11 -1.18 3.13 -10.79 -0.03 -1.21 16
3 C -0.14 -1.25 9.19 71.98 0.66 -0.59 16
4 C 0.09 1.19 4.83 86.38 0.42 1.60 16
5 N -0.48 -8.97 2.46 -649.67 -1.60 -10.57 16
6 C 0.17 1.70 8.20 83.56 0.69 2.38 16
7 C -0.24 -2.97 9.99 21.99 0.22 -2.76 16
8 C 0.05 1.18 9.89 22.83 0.23 1.41 16
9 C -0.31 -10.53 5.05 -19.79 -0.10 -10.63 16
10 C 0.58 25.28 6.84 86.56 0.59 25.87 16
11 O -0.56 -30.07 12.08 -4.17 -0.05 -30.12 16
12 N -0.60 -23.01 3.04 -792.27 -2.41 -25.42 16
13 C 0.11 3.28 5.19 86.85 0.45 3.73 16
14 C -0.12 -2.34 7.09 31.99 0.23 -2.11 16
15 C -0.11 -2.81 6.44 31.79 0.20 -2.60 16
16 C 0.13 4.70 3.08 45.34 0.14 4.84 16
17 H 0.07 2.57 8.10 -2.39 -0.02 2.55 16
18 C 0.15 7.20 5.61 86.38 0.48 7.69 16
19 N -0.75 -44.50 3.88 -343.45 -1.33 -45.83 16
20 C -0.22 -15.40 10.47 84.03 0.88 -14.52 16
21 H 0.05 3.43 8.06 -2.91 -0.02 3.40 16
22 C -0.06 -4.46 5.50 84.86 0.47 -4.00 16
23 N -0.99 -71.94 13.97 21.65 0.30 -71.64 16
24 Si 0.98 57.68 26.61 68.60 1.83 59.51 16
25 H -0.29 -17.38 7.11 99.48 0.71 -16.67 16
26 H -0.27 -15.29 6.52 99.48 0.65 -14.64 16
27 H -0.29 -16.56 7.11 99.48 0.71 -15.86 16
28 C 0.52 16.28 6.57 85.16 0.56 16.84 16
29 O -0.58 -22.54 13.28 -4.93 -0.07 -22.61 16
30 H 0.08 0.05 8.14 -2.39 -0.02 0.03 16
31 H 0.06 0.36 8.14 -2.39 -0.02 0.34 16
32 H 0.05 0.32 6.34 -2.39 -0.02 0.31 16
33 H 0.05 0.86 8.14 -2.39 -0.02 0.84 16
34 H 0.04 0.55 8.14 -2.39 -0.02 0.53 16
35 H 0.07 0.53 8.14 -2.39 -0.02 0.51 16
36 H 0.08 0.39 8.14 -2.39 -0.02 0.37 16
37 H 0.14 0.65 8.00 -2.39 -0.02 0.64 16
38 H 0.07 1.50 7.38 -2.39 -0.02 1.48 16
39 H 0.22 -0.48 7.88 -2.91 -0.02 -0.50 16
40 H 0.19 0.77 8.06 -2.91 -0.02 0.74 16
41 H 0.14 3.29 8.06 -2.91 -0.02 3.27 16
42 H 0.07 1.80 7.25 -2.39 -0.02 1.79 16
43 H 0.06 1.96 6.74 -2.38 -0.02 1.94 16
44 H 0.09 1.51 8.14 -2.39 -0.02 1.49 16
45 H 0.11 1.60 8.14 -2.39 -0.02 1.58 16
46 H 0.08 2.00 7.85 -2.39 -0.02 1.98 16
47 H 0.11 2.13 8.14 -2.39 -0.02 2.11 16
48 H 0.00 0.04 8.14 -2.39 -0.02 0.02 16
49 H 0.04 1.68 8.09 -2.39 -0.02 1.66 16
50 H 0.38 22.46 3.20 -92.71 -0.30 22.16 16
51 H 0.26 17.59 8.31 -92.71 -0.77 16.82 16
Total: -1.00 -105.97 396.48 3.94 -102.03
By element:
Atomic # 1 Polarization: 18.32 SS G_CDS: 0.56 Total: 18.88 kcal
Atomic # 6 Polarization: 19.07 SS G_CDS: 6.70 Total: 25.77 kcal
Atomic # 7 Polarization: -148.42 SS G_CDS: -5.04 Total: -153.46 kcal
Atomic # 8 Polarization: -52.62 SS G_CDS: -0.12 Total: -52.73 kcal
Atomic # 14 Polarization: 57.68 SS G_CDS: 1.83 Total: 59.51 kcal
Total: -105.97 3.94 -102.03 kcal
The number of atoms in the molecule is 51
The average number of expansion shells was 16.00
The maximum number of expansion shells was 16
The minimum number of expansion shells was 16
**** NOTA BENE ****
This is the net solvation energy for this exact molecular structure
(nuclear and electronic)! The standard-state solvation energy should be
obtained as the difference between the heat of formation plus delta-G solvation
for the relaxed solvated system and that for the relaxed gas-phase system.
ZINC001277956805.mol2 51
1SCF run
This is a breakdown of the solvation energy calculated
without geometric relaxation in solution:
(1) E-EN(sol) electronic-nuclear energy of solute 70.065 kcal
(2) G-P(sol) polarization free energy of solvation -105.971 kcal
(3) G-ENP(sol) elect.-nuc.-pol. free energy of system -35.906 kcal
(4) G-CDS(sol) cavity-dispersion-solvent structure free energy 3.940 kcal
(5) G-P-CDS(sol) = G-P(sol) + G-CDS(sol) = (2) + (4) -102.031 kcal
(6) G-S(sol) free energy of system = (1) + (5) -31.966 kcal
1SCF WAS SPECIFIED, SO GEOMETRY OPTIMIZATION WAS NOT USED
Total computer time = 1.00 seconds